* _The High Mountains of Portugal_ (1966)
* _Sudden Rain_ (1969)
* _Youth: A Narrative_ (1974)
* _Love and Separation_ (1978)
* _The Wanderers_ (1986)
* _Night Train to Lisbon_ (1991)
* _City of the Sun_ (1994)
* _Sea of Cortez_ (1996)
* _The Garden of Eden_ (1998)
* _In Paradise_ (2004)
Short story collections:
* _Wine and Water: Four Stories_ (1972)
* _The Raining Tree_ (1975)
* _The Dance Music of the Water_ (1984)
* _Collected Stories_ (1994)
* _On Lighthouses_ (2002)
Non-fiction:
* _The Painted Bride: Portraits of Women from the Bible_ (1997)
* _Light from the East: Studies in Japanese Literature and Religion_ (2001)
* _Japan and Portugal: In Their Art and Culture_ (2008)
* _H. Wesley Peirce: Collected Essays_ (2014)
* _Love in the Raining Wood: Collected Essays on Japanese Literature_ (2016)